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John M. A. Wojahn
My research interests include evolutionary plant biology, genomics, bioinformatics software development, plant systematics, and reproducible science.
Education
Doctor of Philosophy
Ecology, Evolution, and Behavior
Emphasis in Global Change Biology
Boise, Idaho, USA
Present - 2020
Boise State University
Doctoral Advisors: Sven Buerki (Primary), Martin W. Callmander
Committee: James Smith and Stephen Novak
Dissertation: Phylogenetics, systematics, and genomics of Pandanus Park. (Pandanaceae) [in progress]
Master of Science
Biology
Boise, Idaho, USA
2020 - 2018
Boise State University
Major Advisor: Sven Buerki
Committee: James Smith and Stephen Novak
Thesis: A metanalysis of sequences of vascular plants in the world’s biodiversity hotspots with a special section on Madagascar
Bachelor of Science
Marine Biology
Corvallis, Oregon, USA
2016 - 2011
Oregon State University
Honors Advisor: Byron C. Crump
Committee: Fiona Tomas Nash and Ryan Mueller
Thesis: Metagenomics and metatranscriptomics of the leaf-and root-associated microbiomes of Zostera marina and Zostera japonica
Minors in French and Chemistry
Bachelor of Science
Microbiology
Corvallis, Oregon, USA
2016 - 2011
Oregon State University
Peer-Reviewed Publications
Update on the phylogenetic framework of Malagasy angiosperms
In S. M. Goodman (ed.), The new natural history of Madagascar, pp. 464-470.
Princeton University Press.
Princeton, New Jersey, USA
2022
Wojahn JMA, Callmander MW, Lowry PP, Buerki S
Phylogenetic insights into the systematics of Sapindaceae in Madagascar: How have things advanced since Capuron published his family treatment in 1969?
In S. M. Goodman (ed.), The new natural history of Madagascar, pp. TBD.
Princeton University Press.
Princeton, New Jersey, USA
2022
Buerki S, Philipson P, Lowry PP, Wojahn JMA, Andriambololonera S, Callmander MW
Meta-Analysis Reveals Challenges and Gaps for Genome-to-Phenome Research Underpinning Plant Drought Response
Int. J. Mol. Sci. 2022, 23(20), 12297 https://doi.org/10.3390/ijms232012297
Basel, Switzerland
2022
Melton AE, Galla SJ, Dumanguit CD, Wojahn JMA, Novak S, Serpe M, Martinez P, Buerki S
G2PMineR:A Genome to Phenome Literature Review Approach
Genes. 12:293 https://doi.org/10.3390/genes12020293
Basel, Switzerland
2021
Wojahn JMA, Galla SJ, Melton AE, Buerki S
Metatranscriptomics and amplicon sequencing reveal mutualisms in seagrass microbiomes
Frontiers in Microbiology. 2018 9:388 https://doi.org/10.3389/fmicb.2018.00388
Lausanne, Switzerland
2018
Crump BC, Wojahn JMA, Tomas F, Mueller RS
Research Experience
Doctoral Research
Boise State University, Sven Buerki’s Lab (In-Person); Conservatoire et Jardin botaniques de Genève, Martin W. Callmander’s Lab (Remote)
Boise, Idaho, USA; Geneva, Switzerland
Present - 2020
- Investigating the evolutionary history of Pandanus
EPSCoR Graduate Research Assistant
Boise State University, Sven Buerki’s Lab
Boise, Idaho, USA
2022 - 2020
- Provider of bioinformatics programming support for the GEM3 project in Sven Buerki’s lab
- Developed bioinformatics tools for the GEM3 community
Master of Science Research
Boise State University, Sven Buerki’s Lab
Boise, Idaho, USA
2020 - 2017
- Investigated the reproducibility of collections and DNA sequences in biodiversity hotspots
- Went on expedition to Madagascar with Sven Buerki to survey forest
Undergraduate Research Assistant
Oregon State University, Byron Crump’s Lab
Corvallis, Oregon, USA
2016 - 2013
- Investigated the microbiome of Zostera marina and Zostera japonica
- Collected samples on research cruises off the Oregon coast, on the Columbia River, and in the Arctic Ocean
Undergraduate Research Intern
Oregon Department of Fish and Wildlife, Fish Health Services, Leslie Lindsay’s Lab
Corvallis, Oregon, USA
Winter 2012
- Dissected juvenile Pacific Salmon to remove kidneys for ELISA analysis
Undergraduate Research Intern
Oregon State University Hatfield Marine Science Center, Itchung Cheung’s Lab
Newport, Oregon, USA
Spring 2012 - Winter 2011
- Enumerated fish eggs
Teaching Experience
Teaching Assistant, Doctoral
Introductory Cell and Molecular Biology Lab Instructor at Boise State University
Boise, Idaho, USA
Present - 2022
Designed and Implemented G2PMineR Lab Section
Developed a new lab section for BIOL 304 Evolution and Ecology course at Boise State University based on the G2PMineR literature review package that will be made publicly available on the GEM3 website. Supervised by Sarah Dalrymple and implemented by Leonora Bittleston.
Boise, Idaho, USA
Fall 2021
EPSCoR GEM3 Summer Academic Research Experience Mentor
Instructor of R and Laboratory Techniques for EPSCoR GEM3 Summer Academic Research Experience (SARE) Class at Boise State University
Boise, Idaho, USA
Summer 2021
Vertically Integrated Projects Mentor
Instructor of R and Data Mining Techniques for Sven Buerki’s Vertically Integrated Projects (VIP) course at Boise State University
Boise, Idaho, USA
Spring 2021
EPSCoR Research Technician 2/Bioinformatics Instructor
Instructor of R and Data Mining Techniques for Summer Academic Research Experience (SARE) Class at Boise State University
Boise, Idaho, USA
Summer 2020
Teaching Assistant, Masters
Introductory Cell and Molecular Biology Lab Instructor at Boise State University
Boise, Idaho, USA
2020 - 2018
Teaching Assistant, Undergraduate
Assisted in teaching introductory French to 7th grade students at Cheldelin Middle School
Corvallis, Oregon, USA
2015 - 2013
Grants
University Honors College DeLoach Work Scholarship
Oregon State University
Corvallis, Oregon, USA
2014
- $1000
Posters and Presentations
Research and classroom implementation of G2PMineR: a novel genome to phenome literature review approach
Poster for 2022 NSF EPSCoR GEM3 Annual Meeting
Boise, Idaho, USA
2022
Wojahn JMA, Dalrymple S, Bittleston L, Callmander MW, Buerki S
Testing the Reproducibility of Collection and Sequencing Efforts for the Biodiversity Hotspot Flora and Producing a Phylogeny of the Pandanaceae to Assess Evolutionary Distinctiveness and Risk of Extinction
Poster for 2021 Graduate Proposal Showcase
Boise, Idaho, USA
2021
Wojahn JMA, Callmander MW, Smith J, Novack S, Buerki S
G2PMineR: A genome to phenome literature review approach
Poster for 2020 GEM3 Annual Meeting
Boise, Idaho, USA
2020
Wojahn JMA, Galla SJ, Buerki S
Developing a rapid plant community survey for use in biodiversity hotspots
Poster for the Forum on Biodiversity of Global Hotspots
Boise, Idaho, USA
2018
Wojahn JMA, Buerki S
Diversity, Equity, and Inclusion
Summer Authentic Research Experience (SARE)
Mentored minority and first-generation undergraduates
Boise, Idaho, USA
Summer 2021
Summer Authentic Research Experience (SARE)
Mentored minority and first-generation undergraduates
Boise, Idaho, USA
Summer 2020
Plant Identification For People With Visual Impairments
Posted an accessible guide on plant identification for people with visual impairments
online at https://wojahn.github.io/AccessiblePlantID/
Boise, Idaho, USA
2019
Leadership
Vice President
Ecological Research Association
Boise, Idaho, USA
2019-2020
Department of Biological Sciences graduate student social and professional development association
Software Products
G2PMineR
A free and open-source literature mining tool developed specifically for G2P research.
This R package uses automation to make the G2P review process efficient
and unbiased, while also generating hypothesized associations
between genes and phenotypes within
a taxonomical framework.
Boise, Idaho, USA
ongoing-2021
Kew_WCoUP_ProcessoR
An R function that extracts and sorts information from the “Kew World Checklist
of Useful Plants”, which is available only in PDF format.
Boise, Idaho, USA
2022
MyLab Suite
An automatic lab manager program (written in R Shiny) and a digital lab notebook
program (written in C). Available, but not stable.
Boise, Idaho, USA
2018
Certifications
OSHA 30-hour General Industry Training
Occupational Safety and Health Administration
Washington, District of Columbia, USA
2022
Boating Safety Certificate (Boating License)
Commonwealth of Massachusetts
Manchester-by-the-Sea, Massachusetts, USA
2021
Approved by NASBLA, USCG, and Transport Canada, valid in USA and Canada
Multi-Passenger Van Training
Boise State University
Boise, Idaho, USA
2018
Notary Public Training
Secretary of State, State of Idaho
Boise, Idaho, USA
2017
PADI Rescue Diver
Certified by Dive Magic, Inc.
Boise, Idaho, USA
2011
DAN Oxygen First Aid for Scuba Diving Injuries
Certified by Divers Alert Network
Boise, Idaho, USA
2011
EFR-Primary Care (CPR) & Sec Care (1st Aid)
Certified by Dive Magic, Inc.
Boise, Idaho, USA
2010
PADI Enriched Air Diver
Meets ISO 11107 Enriched Air Nitrox Diving Standard
Boise, Idaho, USA
2010
American Red Cross Swimming Training
Instructor: Annie Endo
Misawa, Aomori Prefecture, Japan
1998
Hobbies
Pets
I have a dog (Chérie)
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Guitar
Acoustic and Electric
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Bonsai
Member of the American Bonsai Society
Bristol, Indiana USA
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Drawing/Engraving
4th generation engraver
Manchester-by-the-Sea, Massachusetts, USA
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Tai Chi (Tàijíquán)
Yang style, taught by R. R. Carper
Corvallis, Oregon, USA
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Cross-Country (Nordic) Skiing
Bogus Basin
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Volkswandern/Volksmarching
Member of the American Volkssport Association
San Antonio, Texas, USA
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